Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2244
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 73858
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:5643 original size:21 final size:20
Alignment explanation
Indices: 5598--5653 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
5588 ACTTTAAATG
*
5598 AAAATACTTTG-AAAGCTTGA
1 AAAAT-CTTTGAAAAGCTTAA
*
5618 GAAATCTTTGAAAATGCTTAA
1 AAAATCTTTGAAAA-GCTTAA
*
5639 AAAATATTTAGAAAA
1 AAAATCTTT-GAAAA
5654 AAACCAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.17
20 7 0.24
21 12 0.41
22 5 0.17
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.30
Consensus pattern (20 bp):
AAAATCTTTGAAAAGCTTAA
Found at i:6377 original size:31 final size:31
Alignment explanation
Indices: 6339--6457 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 31
6329 ACATGTATGA
6339 ATGTATCGATACATTTTGTCGTTTTACCCAG
1 ATGTATCGATACATTTTGTCGTTTTACCCAG
**
6370 ATGTATCGATACATTTT-TCAATGTATTGATACATGTATG
1 ATGTATCGATACATTTTGTC---GT-TT--TAC--CCA-G
* *
6409 AATGTATCGATACATTCTGTCTTTTTACCCAG
1 -ATGTATCGATACATTTTGTCGTTTTACCCAG
*
6441 ATGTATCGATATATTTT
1 ATGTATCGATACATTTT
6458 TCAATGTATC
Statistics
Matches: 69, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
30 2 0.03
31 32 0.46
32 1 0.01
33 3 0.04
34 2 0.03
35 3 0.04
36 3 0.04
37 2 0.03
38 2 0.03
39 1 0.01
40 16 0.23
41 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (31 bp):
ATGTATCGATACATTTTGTCGTTTTACCCAG
Found at i:6395 original size:20 final size:20
Alignment explanation
Indices: 6370--6424 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
6360 TTTTACCCAG
*
6370 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* * *
6390 ATGTATTGATACATGTATGA
1 ATGTATCGATACATTTATCA
6410 ATGTATCGATACATT
1 ATGTATCGATACATT
6425 CTGTCTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:6466 original size:20 final size:20
Alignment explanation
Indices: 6441--6491 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
6431 TTTTACCCAG
* *
6441 ATGTATCGATATATTTTTCA
1 ATGTATCGATATATGTATCA
*
6461 ATGTATCGATATATGTATGA
1 ATGTATCGATATATGTATCA
6481 ATGTATCGATA
1 ATGTATCGATA
6492 CATTCTGTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (20 bp):
ATGTATCGATATATGTATCA
Found at i:6539 original size:71 final size:71
Alignment explanation
Indices: 6318--6526 Score: 373
Period size: 71 Copynumber: 2.9 Consensus size: 71
6308 TTTTTACCCA
* * *
6318 AATGTATCGATACATGTATGAATGTATCGATACATTTTGTCGTTTTACCCAGATGTATCGATACA
1 AATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATATA
6383 TTTTTC
66 TTTTTC
*
6389 AATGTATTGATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATATA
1 AATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATATA
6454 TTTTTC
66 TTTTTC
*
6460 AATGTATCGATATATGTATGAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATATA
1 AATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATATA
6525 TT
66 TT
6527 GAATAATGTA
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 132 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (71 bp):
AATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATATA
TTTTTC
Found at i:10391 original size:21 final size:21
Alignment explanation
Indices: 10366--10407 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10356 CTTATTGATA
*
10366 AAAGAATTTAGAA-AAAATTTT
1 AAAGAA-TTAAAATAAAATTTT
10387 AAAGAATTAAAATAAAATTTT
1 AAAGAATTAAAATAAAATTTT
10408 TATGCAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAGAATTAAAATAAAATTTT
Found at i:15857 original size:20 final size:20
Alignment explanation
Indices: 15832--15886 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
15822 ATTTAACTGG
15832 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
15852 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
15872 ATGTATCGATACATT
1 ATGTATCGATACATT
15887 TAGGTCGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:15927 original size:52 final size:51
Alignment explanation
Indices: 15849--15990 Score: 185
Period size: 51 Copynumber: 2.8 Consensus size: 51
15839 GATACATTGA
* * * * *
15849 AGAATGTATCGATACATTGAAGAATGTATCGATACATTTAGGTCGAATACCT
1 AGAATGTATCGATACAATGAAGAATGTATCGATACATTT-GGACCAAAACCC
* *
15901 AGAATGTTTCGATACAATGAAGAATGTATTGATACATTTGGACCAAAACCC
1 AGAATGTATCGATACAATGAAGAATGTATCGATACATTTGGACCAAAACCC
* * *
15952 ATAATGCATCGATACAATGAAAAATGTATCGATACATTT
1 AGAATGTATCGATACAATGAAGAATGTATCGATACATTT
15991 TCTTTCCAGA
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 42 0.54
52 36 0.46
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (51 bp):
AGAATGTATCGATACAATGAAGAATGTATCGATACATTTGGACCAAAACCC
Found at i:19578 original size:50 final size:50
Alignment explanation
Indices: 19518--19641 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 50
19508 AAAATTTCTA
* * * * *
19518 GATTTTTCATCTCGGGGGTACT-TCAACCTCGGCTTTATTTCTAAAATATT
1 GATTTTTCATCTCGGGGATACTCT-AACCCCGGCTTTATTTCCAAAACATC
*
19568 GATTTTTCATCTCGGGGATACTCTAACCCCGGTTTTATTTCCAAAACATC
1 GATTTTTCATCTCGGGGATACTCTAACCCCGGCTTTATTTCCAAAACATC
* * *
19618 AATTTTTCATAATTGGGGATACTC
1 GATTTTTCAT-CTCGGGGATACTC
19642 CAATCCCCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 51 0.81
51 12 0.19
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (50 bp):
GATTTTTCATCTCGGGGATACTCTAACCCCGGCTTTATTTCCAAAACATC
Found at i:19716 original size:79 final size:78
Alignment explanation
Indices: 19583--19727 Score: 191
Period size: 79 Copynumber: 1.8 Consensus size: 78
19573 TTCATCTCGG
* * * * **
19583 GGATACTCTAACCCCGGTTTTATTTCCAAAACATCAATTTTTCATAATTGGGGATACTCCAATCC
1 GGATACTCTAACCCCAGCTTTATTTCCAAAACATCAATTTCTCACAATCAGGGATACTCCAA-CC
19648 CCTTATTTTCGAGA
65 CCTTATTTTCGAGA
* * **
19662 GGATACTCTAACCCCAGCTTTATTTCTAAAATATTGATTTCTCACAATCAGGGATACTCCAACCC
1 GGATACTCTAACCCCAGCTTTATTTCCAAAACATCAATTTCTCACAATCAGGGATACTCCAACCC
19727 C
66 C
19728 AATTTTATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
78 4 0.07
79 52 0.93
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (78 bp):
GGATACTCTAACCCCAGCTTTATTTCCAAAACATCAATTTCTCACAATCAGGGATACTCCAACCC
CTTATTTTCGAGA
Found at i:19798 original size:131 final size:129
Alignment explanation
Indices: 19549--19859 Score: 421
Period size: 131 Copynumber: 2.4 Consensus size: 129
19539 TTCAACCTCG
* * **
19549 GCTTTATTTCTAAAATATTGATTTTTCATC--TCGGGGATACTCTAACCCCGGTTTTATTTCCAA
1 GCTTTATTTCTAAAATATTGATTTCTCA-CAATCGGGGATACTCCAACCCCAATTTTATTTCCAA
* * * * * *
19612 AACATCAATTTTTCATAATTGGGGATACTCCAATCCCCTTATTTTCGAGAGGATACTCTAACCCC
65 AACACCAATTTTTCACAATCGAGGATACTCCAATCCCCTTATTTCCAAGAGGATACTCTAACCCC
* *
19677 AGCTTTATTTCTAAAATATTGATTTCTCACAATCAGGGATACTCCAACCCCAATTTTATTTCTAA
1 -GCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCAATTTTATTTCCAA
* *
19742 AACACCAATCTTTTCACAATCGAGGATACTCCAATCTCGTTATTTCCAATGA-GATACTCTAACC
65 AACACCAAT-TTTTCACAATCGAGGATACTCCAATCCCCTTATTTCCAA-GAGGATACTCTAACC
19806 CC
128 CC
*
19808 GATTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCA
1 G-CTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCA
19860 TTATTTTCAC
Statistics
Matches: 161, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
128 1 0.01
129 27 0.17
130 37 0.23
131 94 0.58
132 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (129 bp):
GCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCAATTTTATTTCCAAA
ACACCAATTTTTCACAATCGAGGATACTCCAATCCCCTTATTTCCAAGAGGATACTCTAACCCC
Found at i:19807 original size:80 final size:79
Alignment explanation
Indices: 19714--20019 Score: 339
Period size: 79 Copynumber: 3.9 Consensus size: 79
19704 CACAATCAGG
* * * * *
19714 GATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCGAGGATACTCCAATCT
1 GATACTCCAACCCCGATTTTATTTCTAAAACACCGAT-TTTTCACAATCGGGGATACTCCAACCC
* *
19779 CGTTATTTCCAATGA
65 CGTTATTTTCAAGGA
* * ** *
19794 GATACTCTAACCCCGATTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCC
1 GATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCC
*
19859 ATTATTTTCACAGGA
66 GTTATTTTCA-AGGA
* ** * * * *
19874 -ATACTCCAACCCTGACCTTATTTCTAAAGCATCGATTTTCCATAATCGGGGATACTCCAACCCC
1 GATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCC
* *
19938 GTTATTTTCGAGGG
66 GTTATTTTCAAGGA
* *
19952 GATACTCCAACCCCGATTTTATTT-TCAAAACACTGA-TTTTCTATAATCGGGGATACTCCAACC
1 GATACTCCAACCCCGATTTTATTTCT-AAAACACCGATTTTTC-ACAATCGGGGATACTCCAACC
20015 CCGTT
64 CCGTT
20020 GTTATCCCCA
Statistics
Matches: 189, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
78 8 0.04
79 147 0.78
80 34 0.18
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.32
Consensus pattern (79 bp):
GATACTCCAACCCCGATTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCC
GTTATTTTCAAGGA
Found at i:21668 original size:24 final size:25
Alignment explanation
Indices: 21641--21688 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
21631 TTCCTTTTTT
*
21641 CTAAAA-AAAATAACAAAAAAAAAA
1 CTAAAATAAAAAAACAAAAAAAAAA
*
21665 CTAAAATAAAAAAAGAAAAAAAAA
1 CTAAAATAAAAAAACAAAAAAAAA
21689 GAACCTGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.83, C:0.06, G:0.02, T:0.08
Consensus pattern (25 bp):
CTAAAATAAAAAAACAAAAAAAAAA
Found at i:21672 original size:20 final size:20
Alignment explanation
Indices: 21647--21684 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21637 TTTTCTAAAA
21647 AAAATAACAAAAA-AAAAACT
1 AAAATAA-AAAAAGAAAAACT
21667 AAAATAAAAAAAGAAAAA
1 AAAATAAAAAAAGAAAAA
21685 AAAAGAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.84, C:0.05, G:0.03, T:0.08
Consensus pattern (20 bp):
AAAATAAAAAAAGAAAAACT
Found at i:22754 original size:61 final size:61
Alignment explanation
Indices: 22671--23266 Score: 779
Period size: 61 Copynumber: 9.8 Consensus size: 61
22661 TTTAGCCCTT
* * * **
22671 AAAGAGAAGAACGCCTTCTCCTTTTAAAGCTTACACAAGTTGGTGGCACCTTTCAGTCCTC
1 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * * * *
22732 AAAGATCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACCTTTC-GATGCTC
1 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG-TCCTC
* * * *
22793 AAAGTGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCGGTGCTC
1 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * *
22854 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTTAGTCCTC
1 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * * *
22915 AAAGAGCAGGGCGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTC
1 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * * * *
22976 AAAGAGCAGGAC-ACTTTT-CTTTCACAGCCCACATAAGTTGTTGGCACCTTTCAGTCCTC
1 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * * * * *
23035 AAAAAGCAAGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGTCACCTTTCAATCCTC
1 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * *
23096 AAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTC
1 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * *
23157 AAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTCCAGTCCTC
1 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * *
23218 AAAGAGTAGGACG-C-TTTCCTCTTAAAGCCCACACAAGTTGTTGGCACCT
1 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
23267 ATCTACTTCA
Statistics
Matches: 468, Mismatches: 63, Indels: 10
0.87 0.12 0.02
Matches are distributed among these distances:
59 77 0.16
60 11 0.02
61 379 0.81
62 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
Found at i:23099 original size:242 final size:240
Alignment explanation
Indices: 22658--23266 Score: 815
Period size: 242 Copynumber: 2.5 Consensus size: 240
22648 AACCTTTTAT
* * * * * ** *
22658 CCTTTTAGCCCTTAAAGAGAAGAACGCCTTCTCCTTTTAAAGCTTACACAAGTTGGTGGCACCTT
1 CCTTTTAGTCCTCAAAGAGCAGGACGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACATT
* * * *
22723 TCAGTCCTCAAAGATCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACCTTTCGA
66 TCAGTCCTCAAAGAGCAGGA--CCTTTT-C-TTTAAAGCCCACACAAGTTGTTGGCACCTTTCGA
* ** * ** *
22788 TGCTCAAAGTGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCGGTGCT
127 TCCTCAAAAAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCT
*
22853 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
192 CAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
22902 TCTTTTAGTCCTCAAAGAGCAGGGCGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
1 CCTTTTAGTCCTCAAAGAGCAGGACGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACATT
* *
22967 TCAGTCCTCAAAGAGCAGGACACTTTTCTTTCACAGCCCACATAAGTTGTTGGCACCTTTC-AGT
66 TCAGTCCTCAAAGAGCAGGAC-CTTTTCTTT-AAAGCCCACACAAGTTGTTGGCACCTTTCGA-T
* * * *
23031 CCTCAAAAAGCAAGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGTCACCTTTCAATCCTC
128 CCTCAAAAAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTC
*
23096 AAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
193 AAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
23144 CCTTTTAGTCTTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACATT
1 CCTTTTAGTCCTCAAAGAGCAGGACGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACATT
* * *
23209 CCAGTCCTCAAAGAGTAGGACGCTTTCCTCTTAAAGCCCACACAAGTTGTTGGCACCT
66 TCAGTCCTCAAAGAGCAGGAC-CTTTTCT-TTAAAGCCCACACAAGTTGTTGGCACCT
23267 ATCTACTTCA
Statistics
Matches: 321, Mismatches: 40, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
241 4 0.01
242 237 0.74
243 7 0.02
244 73 0.23
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (240 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACATT
TCAGTCCTCAAAGAGCAGGACCTTTTCTTTAAAGCCCACACAAGTTGTTGGCACCTTTCGATCCT
CAAAAAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAA
GAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:25877 original size:79 final size:77
Alignment explanation
Indices: 25794--26173 Score: 341
Period size: 79 Copynumber: 4.8 Consensus size: 77
25784 CCATCATCGA
** *
25794 GGATACTCCAACTCCAATTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAACCT
1 GGATACTCCAAC-CCGGTTTTATTTCTAAAACA-TGATTTTTCACCATCGGGGATACTCCAACCT
*
25859 CATTGTTTTTGAGG
64 CATTATTTTTGAGG
* * * * *
25873 GGATACTCTAACCCTGGTTTTATTTGC-AAAATATTGACTTTTCACAATCGGGGATACTCTAACC
1 GGATACTCCAACCC-GGTTTTATTT-CTAAAACA-TGATTTTTCACCATCGGGGATACTCCAACC
** *
25937 TTGTTATTTCTGAGG
63 TCATTATTTTTGAGG
* * * * * *
25952 GGATACTCCAACCCCAGCTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCC
1 GGATACTCCAA-CCCGGTTTTATTTCTAAAACAT-GATTTTTCACCATCGGGGATACTCCAACCT
* *
26017 CGTTATTTTTTAGG
64 CATTATTTTTGAGG
* * * *
26031 GGATACTTCAACTCTGGTTTTATTTCTAAAACACTGATTTTTCACCATCAGGGATGCTCCAACC-
1 GGATACTCCAAC-CCGGTTTTATTTCTAAAACA-TGATTTTTCACCATCGGGGATACTCCAACCT
26095 CTATTATTTTTGAGG
64 C-ATTATTTTTGAGG
* * * * * * * * *
26110 GCATACTCCAACCTCGATTTTGTTTCCAAAATATCAAATTTTCACCATCGAGGATTCTCCAACC
1 GGATACTCCAACC-CGGTTTTATTTCTAAAACAT-GATTTTTCACCATCGGGGATACTCCAACC
26174 CTATTTTTTC
Statistics
Matches: 243, Mismatches: 48, Indels: 20
0.78 0.15 0.06
Matches are distributed among these distances:
78 8 0.03
79 230 0.95
80 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (77 bp):
GGATACTCCAACCCGGTTTTATTTCTAAAACATGATTTTTCACCATCGGGGATACTCCAACCTCA
TTATTTTTGAGG
Found at i:26085 original size:158 final size:158
Alignment explanation
Indices: 25794--26182 Score: 430
Period size: 158 Copynumber: 2.5 Consensus size: 158
25784 CCATCATCGA
* * * *
25794 GGATACTCCAACTCCAATTTTATTTCTAAAACA-CTAATTTTTCACCATCGGGGATACTCCAACC
1 GGATACTCCAACCCCAGTTTTATTTCTAAAACATC-AAATTTTCACCATCGAGGATACTCCAACC
* * * * *
25858 TCATTGTTTTTGAGGGGATACTCTAACCCTGGTTTTATTTGCAAAATATTGACTTTTCACAATCG
65 CCATTATTTTTGAGGGGATACTCTAACCCTGGTTTTATTTGCAAAACACTGACTTTTCACAATCA
* * *
25923 GGGATACTCTAACCTTGTTATTTCTGAGG
130 GGGATACTCCAACCCTATTATTTCTGAGG
* * *
25952 GGATACTCCAACCCCAGCTTTATTTCTAAAACATC-GATTTTCCACAATCGAGGATACTCCAACC
1 GGATACTCCAACCCCAGTTTTATTTCTAAAACATCAAATTTT-CACCATCGAGGATACTCCAACC
* * * * *
26016 CCGTTATTTTTTAGGGGATACT-TCAACTCTGGTTTTATTT-CTAAAACACTGATTTTTCACCAT
65 CCATTATTTTTGAGGGGATACTCT-AACCCTGGTTTTATTTGC-AAAACACTGACTTTTCACAAT
* *
26079 CAGGGATGCTCCAACCCTATTATTTTTGAGG
128 CAGGGATACTCCAACCCTATTATTTCTGAGG
* * * * * *
26110 GCATACTCCAACCTC-GATTTTGTTTCCAAAATATCAAATTTTCACCATCGAGGATTCTCCAACC
1 GGATACTCCAACCCCAG-TTTTATTTCTAAAACATCAAATTTTCACCATCGAGGATACTCCAACC
*
26174 CTATT-TTTT
65 CCATTATTTT
26183 CTTCAAAATA
Statistics
Matches: 192, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
157 11 0.06
158 175 0.91
159 6 0.03
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (158 bp):
GGATACTCCAACCCCAGTTTTATTTCTAAAACATCAAATTTTCACCATCGAGGATACTCCAACCC
CATTATTTTTGAGGGGATACTCTAACCCTGGTTTTATTTGCAAAACACTGACTTTTCACAATCAG
GGATACTCCAACCCTATTATTTCTGAGG
Found at i:29522 original size:52 final size:52
Alignment explanation
Indices: 29452--29572 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
29442 GAAAATTTAT
*
29452 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
29504 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTTC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
29556 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
29573 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:29585 original size:52 final size:51
Alignment explanation
Indices: 29444--29592 Score: 203
Period size: 52 Copynumber: 2.9 Consensus size: 51
29434 CGAAATATGA
29444 AAATTTAT-CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTT-TCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
29496 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTTCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
29548 AAATTTTCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTTCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
29593 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (51 bp):
AAATTTTCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:29599 original size:13 final size:13
Alignment explanation
Indices: 29581--29605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29571 CAAAGATCAG
29581 TGTATCGATACAA
1 TGTATCGATACAA
29594 TGTATCGATACA
1 TGTATCGATACA
29606 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:29688 original size:13 final size:13
Alignment explanation
Indices: 29670--29694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29660 CAAAAAAATA
29670 TGTATCGATACAT
1 TGTATCGATACAT
29683 TGTATCGATACA
1 TGTATCGATACA
29695 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:29690 original size:33 final size:33
Alignment explanation
Indices: 29648--29714 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
29638 AGTAGCTTAA
29648 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
29681 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
29714 A
1 A
29715 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:30661 original size:49 final size:49
Alignment explanation
Indices: 30515--30673 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
30505 AAAAGTGATA
* * * * *
30515 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
30566 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
30619 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
30668 ATGATG
1 AAGATG
30674 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:30676 original size:171 final size:171
Alignment explanation
Indices: 30282--30838 Score: 739
Period size: 171 Copynumber: 3.2 Consensus size: 171
30272 TTTTGCAATG
* * * * * * * *
30282 TGCCACTATGCAGATTCAAGGCCTGCCACACTGGACTTAAAGATGATGAGGATGGAAAGTGATAA
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGA-GAAAAGTGATAA
* * * *
30347 A-AGGACCAATACGTTGATTCACGGCCAACGATATTGGG-TTGAAAGATGAGAAAAAGGA--TAA
65 AGATG-CCAATATGTTGATTCATGGCCAACGATATTGGGCTT-AAAGATGAGAAAAAGGATGTCA
* * ** * * * * * *
30408 AAGAGCCAATATGC--GGCTAGCGATATTGGACTTAAAGATAAAGG
128 ACGTGCTGAT-T-CAAGGCCAGCTACATTGAACTTAAAGATGAAGA
* *
30452 TGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAA
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAAGTGATAAA
*
30517 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACG
66 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACG
30582 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGA
131 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGA
* *
30623 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAAGTGATAAA
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAAGTGATAAA
30688 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACG
66 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACG
*
30753 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAA
131 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT-GAAGA
*
30795 TGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 --TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
30839 GTGCCAATGT
Statistics
Matches: 345, Mismatches: 33, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
169 61 0.18
170 47 0.14
171 193 0.56
172 4 0.01
174 40 0.12
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (171 bp):
TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAAGTGATAAA
GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACG
TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGA
Found at i:31053 original size:49 final size:49
Alignment explanation
Indices: 30752--33356 Score: 2271
Period size: 49 Copynumber: 53.6 Consensus size: 49
30742 GGATGTCAAC
* *
30752 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
30804 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
30847 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
30899 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * **
30942 GTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGT-GGGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
30990 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
31039 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
31088 ATGCTGATTCAATGCCAGCGATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
**
31131 GTGCTGATTCAAGGCCAGCTACATTGGACTTAATAG-T-GGGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAA-AGATAAAGGTGCCAAT
31179 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
31228 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
31277 ATGCTGATTCAATGCCAGCGATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* *
31320 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
31369 ATGCTGATTCAGGGCCAGCTATATTGGGC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * **
31412 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAA-
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
** * * * * ** *
31460 AAG-TGA-TAAAGATGCCAATATGTTGATTCA-TGG-C-CAACGATATTGG-GCCTAAA
1 GTGCTGATTCAAG--GCC---A-GCT-A--CATTGGACTTAAAGATAAAGGTGCC-AAT
* ** * * * *** * * *
31513 GATG-AGA-AAAAGG--ATGTCAAC-GTGCTGA-TTCAAG-GCCAGCT-ACATT
1 G-TGCTGATTCAAGGCCA-G-CTACATTG--GACTTAAAGATAAAGGTGCCAAT
** * * *** * *** *
31559 GAACTTAAAGA-TGAAGATGCCA-ATATGCT-GA-TTCAAG-GCCA---GCGATAT
1 GTGC-T---GATTCAAG--GCCAGCTACATTGGACTTAAAGATAAAGGTGCCA-AT
* **** * * ** * ** ***
31607 -TG--GACTTAAAAATGATGATGAGAAAAGTGA--TAAAGATGCCAATATGTTGAT
1 GTGCTGA-TTCAAGGCCA-GCT-A-CATTG-GACTTAAAGAT--AAAGGTGCCAAT
** * ** * ** ** * * * *
31658 -T-CATG-GCCAACGATA-TTAGGC-TTAAAGAT-GAGAAAAAGGATGTCAAC
1 GTGC-TGATTCAAGGCCAGCTA--CATTGGACTTAAAGATAAAGG-TGCCAAT
* *
31705 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
31757 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* *
31800 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
31849 ATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
31892 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
31941 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
31990 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
32039 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
32088 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* * *
32140 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
32189 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* * *
32241 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
32290 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* * *
32342 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
32391 GTGCTGAGTCAA-GCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* * *
32442 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* *
32491 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
32543 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* *
32586 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
32635 ATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
32678 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
32727 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
32776 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
32825 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
32874 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* * *
32926 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
32975 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* * *
33027 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
33076 GTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGTTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* * *
33128 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
33177 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* * *
33229 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
33278 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
33330 ATGCTGATTCAAGGCCAGCTATATTGG
1 GTGCTGATTCAAGGCCAGCTACATTGG
33357 GCATAGAAGG
Statistics
Matches: 2092, Mismatches: 309, Indels: 304
0.77 0.11 0.11
Matches are distributed among these distances:
41 3 0.00
43 337 0.16
44 10 0.00
45 3 0.00
46 16 0.01
47 20 0.01
48 130 0.06
49 993 0.47
50 10 0.00
51 34 0.02
52 516 0.25
53 7 0.00
54 11 0.01
55 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
Found at i:31503 original size:110 final size:114
Alignment explanation
Indices: 31358--31577 Score: 277
Period size: 122 Copynumber: 1.9 Consensus size: 114
31348 CTTAAAGATG
* * *
31358 AAGATGCCAATATGCTGATTCAGGGCCAGCTATATTGGG-CT-T-AAAGG-TGCCAATGTGCTGA
1 AAGATGCCAATATGCTGATTCAGGGCCAACGATATTGGGCCTATAAAAGGATGCCAACGTGCTGA
*
31419 TTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTGATA
66 TTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGAGAAAAGTGATA
* * *
31468 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGCTGATTCAGGGCCAACGATATTGGGCCT----AT----AAAAGGATGCCAA
31533 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATG
58 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATG
31578 CCAATATGCT
Statistics
Matches: 91, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
110 35 0.38
111 2 0.02
116 1 0.01
121 5 0.05
122 48 0.53
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24
Consensus pattern (114 bp):
AAGATGCCAATATGCTGATTCAGGGCCAACGATATTGGGCCTATAAAAGGATGCCAACGTGCTGA
TTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGAGAAAAGTGATA
Found at i:31649 original size:171 final size:173
Alignment explanation
Indices: 31404--31790 Score: 679
Period size: 171 Copynumber: 2.2 Consensus size: 173
31394 GGGCTTAAAG
* * *
31404 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAA
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAATGAAGATGAGAAAAGTGATAA
*
31469 AGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAAC
66 AGATGCCAATATGTTGATTCATGGCCAACGATATTAGGCCTAAAGATGAGAAAAAGGATGTCAAC
*
31534 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT-GAAGA
131 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAA
* *
31576 -TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAAGTGATAA
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAATGAAGATGAGAAAAGTGATAA
*
31640 AGATGCCAATATGTTGATTCATGGCCAACGATATTAGGCTTAAAGATGAGAAAAAGGATGTCAAC
66 AGATGCCAATATGTTGATTCATGGCCAACGATATTAGGCCTAAAGATGAGAAAAAGGATGTCAAC
31705 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAA
131 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAA
31748 TGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
31791 GGTGCCAATG
Statistics
Matches: 203, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
171 159 0.78
172 4 0.02
174 40 0.20
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (173 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAATGAAGATGAGAAAAGTGATAA
AGATGCCAATATGTTGATTCATGGCCAACGATATTAGGCCTAAAGATGAGAAAAAGGATGTCAAC
GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAA
Found at i:32207 original size:101 final size:101
Alignment explanation
Indices: 31638--33356 Score: 2824
Period size: 101 Copynumber: 17.4 Consensus size: 101
31628 GAAAAGTGAT
* * * * * *
31638 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTAGG-CTTAAAGATGAGAAAAAGGATGTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT-GGACTTAAAGAT--G---AAGG-TGCC
* * *
31702 AACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
59 AATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
31745 AAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
*
31804 TGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
31838 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
31896 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
31930 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
31994 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
32028 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
32092 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
32128 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
32193 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
32229 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
32294 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
32330 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
32395 TGAGTCAA-GCCAGCTACATTGGACTTAAAGATGGA
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
32430 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
32495 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
32531 AAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
*
32590 TGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
32624 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
32682 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
32716 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
32780 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
32814 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
32878 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
32914 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
32979 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
33015 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTAC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
33080 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
33116 AAAGTTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
33181 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
33217 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
33282 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
33318 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGG
33357 GCATAGAAGG
Statistics
Matches: 1565, Mismatches: 27, Indels: 46
0.96 0.02 0.03
Matches are distributed among these distances:
92 260 0.17
94 2 0.00
95 88 0.06
96 6 0.00
97 1 0.00
98 292 0.19
99 2 0.00
100 100 0.06
101 777 0.50
103 1 0.00
106 2 0.00
107 34 0.02
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (101 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:33404 original size:33 final size:33
Alignment explanation
Indices: 33361--33458 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
33351 TATTGGGCAT
33361 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGGA
33395 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT-GGA
33429 AG-A-GTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGG
33459 GAAGGAAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
31 2 0.03
32 25 0.40
33 27 0.43
34 9 0.14
ACGTcount: A:0.17, C:0.18, G:0.37, T:0.28
Consensus pattern (33 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGA
Found at i:33536 original size:34 final size:33
Alignment explanation
Indices: 33472--34065 Score: 824
Period size: 34 Copynumber: 17.7 Consensus size: 33
33462 GGAAAAAAGA
* *
33472 TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTAAAA--GAAGAAG-G
* *
33507 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
33540 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTT-AAAA--GAAGAAG-G
*
33577 TGCCATGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
33609 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
*
33643 TGCCACGGAGTTGTGGGCTTTAAAA-AAGTAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
* *
33675 TGCCACAGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
33709 TGCCACGGAGTTGTGGGCTTT-AAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
33740 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
33774 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
33806 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
*
33840 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
*
33874 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
33908 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
33940 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
33974 TGCCACGGAGTTGTGGGCTTTAAAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT--AAAAGAAGAAGG
* * *
34009 TGCCACGGAGTTATGGGCTTTAAAGGAACAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
34042 TGCCACCGAGTTGTGGGCTTTAAA
1 TGCCACGGAGTTGTGGGCTTTAAA
34066 GAAAAAATGC
Statistics
Matches: 518, Mismatches: 24, Indels: 36
0.90 0.04 0.06
Matches are distributed among these distances:
31 28 0.05
32 106 0.20
33 83 0.16
34 216 0.42
35 48 0.09
36 16 0.03
37 21 0.04
ACGTcount: A:0.30, C:0.12, G:0.37, T:0.21
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
Found at i:33659 original size:66 final size:66
Alignment explanation
Indices: 33464--34065 Score: 910
Period size: 66 Copynumber: 9.0 Consensus size: 66
33454 TTTGGGAAGG
* * * *
33464 AAAA-AAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCT
33526 TTAA
63 TTAA
* * * * *
33530 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGC
1 AA-AAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAA--GAAGAAG-GTGCCACGGAGTTGTGGGC
33595 TTTAA
62 TTTAA
33600 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
33665 A
66 A
* *
33666 AAAAGTAGGTGCCACAGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
33730 A
66 A
33731 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
33796 A
66 A
33797 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
33862 GAA
65 -AA
*
33865 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
33930 A
66 A
33931 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
33996 AAA
65 -AA
* * *
33999 AAGAAGAAGGTGCCACGGAGTTATGGGCTTT--AAAGGAACAAGGTGCCACCGAGTTGTGGGCTT
1 AA-AAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTT
34062 TAA
64 TAA
34065 A
1 A
34066 GAAAAAATGC
Statistics
Matches: 507, Mismatches: 18, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
65 63 0.12
66 220 0.43
67 11 0.02
68 115 0.23
69 59 0.12
70 39 0.08
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.21
Consensus pattern (66 bp):
AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
A
Found at i:33932 original size:134 final size:132
Alignment explanation
Indices: 33472--34065 Score: 910
Period size: 134 Copynumber: 4.4 Consensus size: 132
33462 GGAAAAAAGA
* * *
33472 TGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
1 TGCCACGGAGTTGTGGGCTTTGGAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAA-AA
* * * * *
33535 AAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAA
62 GAAGGTGCCACGGAGTTGTGGGCTTTGGAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTAA
*
33600 AAAAGAAGG
124 AGAAGAAGG
*
33609 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGTAG
1 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
*
33674 GTGCCACAGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA-AAGAA
66 GTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAGAA
33738 GG
131 GG
33740 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
1 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
33805 GTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAG
66 GTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAGAAG
33870 AAGG
129 AAGG
33874 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
1 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
33939 GTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAA
66 GTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT---AAAGAA
34004 GAAGG
128 GAAGG
* * *
34009 TGCCACGGAGTTATGGGCTTT--AAAGGAACAAGGTGCCACCGAGTTGTGGGCTTTAAA
1 TGCCACGGAGTTGTGGGCTTTGGAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
34066 GAAAAAATGC
Statistics
Matches: 433, Mismatches: 17, Indels: 17
0.93 0.04 0.04
Matches are distributed among these distances:
131 126 0.29
132 24 0.06
133 12 0.03
134 158 0.36
135 59 0.14
136 26 0.06
137 23 0.05
138 2 0.00
139 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.37, T:0.21
Consensus pattern (132 bp):
TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
GTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAGAA
GG
Found at i:34104 original size:30 final size:30
Alignment explanation
Indices: 34042--34153 Score: 170
Period size: 30 Copynumber: 3.7 Consensus size: 30
34032 AGGAACAAGG
* * * * *
34042 TGCCACCGAGTTGTGGGCTTTAAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTT-GAGACAAAA
34073 TGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGACAAAA
34103 TGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGACAAAA
34133 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
34154 AAAAAGGTAT
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 58 0.76
31 18 0.24
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:35108 original size:13 final size:13
Alignment explanation
Indices: 35090--35121 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
35080 TGAAAAGGGG
35090 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
*
35103 TTTTTTGTTTTTT
1 TTTTTTCTTTTTT
35116 TTTTTT
1 TTTTTT
35122 TGAAGAGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.94
Consensus pattern (13 bp):
TTTTTTCTTTTTT
Found at i:35114 original size:14 final size:14
Alignment explanation
Indices: 35097--35123 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35087 GGGTTTTTTC
35097 TTTTTTTTTTTTGT
1 TTTTTTTTTTTTGT
35111 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
35124 AAGAGTAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (14 bp):
TTTTTTTTTTTTGT
Found at i:39158 original size:21 final size:21
Alignment explanation
Indices: 39134--39176 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
39124 ATCAAAATGA
39134 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
39155 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
39176 C
1 C
39177 TCCTGACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
CATTCATTGCATGACGAGATG
Found at i:42476 original size:52 final size:52
Alignment explanation
Indices: 42407--42526 Score: 222
Period size: 52 Copynumber: 2.3 Consensus size: 52
42397 AAAATTTATT
*
42407 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
42459 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
42511 TGCATGTATCGATACA
1 TGCATGTATCGATACA
42527 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:42539 original size:52 final size:51
Alignment explanation
Indices: 42407--42546 Score: 210
Period size: 52 Copynumber: 2.7 Consensus size: 51
42397 AAAATTTATT
42407 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCC
* *
42459 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCC
*
42511 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATTA-AT-AGTGTATCGATACA
42547 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:42553 original size:13 final size:13
Alignment explanation
Indices: 42535--42559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42525 CAAAGATCAG
42535 TGTATCGATACAA
1 TGTATCGATACAA
42548 TGTATCGATACA
1 TGTATCGATACA
42560 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:42642 original size:13 final size:13
Alignment explanation
Indices: 42624--42648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42614 CAAAAAAATA
42624 TGTATCGATACAT
1 TGTATCGATACAT
42637 TGTATCGATACA
1 TGTATCGATACA
42649 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:42644 original size:33 final size:33
Alignment explanation
Indices: 42602--42668 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
42592 AGTAGCTTAA
42602 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
42635 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
42668 A
1 A
42669 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:43799 original size:20 final size:21
Alignment explanation
Indices: 43766--43809 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
43756 AACATGTGTT
43766 GATACATTCACTTA-TGTATC
1 GATACATTCACTTATTGTATC
43786 GATACATT-ACCTTATTGTATC
1 GATACATTCA-CTTATTGTATC
43807 GAT
1 GAT
43810 GAAAATTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (21 bp):
GATACATTCACTTATTGTATC
Found at i:47492 original size:59 final size:59
Alignment explanation
Indices: 47398--47549 Score: 177
Period size: 59 Copynumber: 2.6 Consensus size: 59
47388 TAGTCATTTT
* * * *
47398 CATGATTTAAAG-ACCTTTATTTC-ATTTTATGCATTTTAAGGTCCTTCTAATAATTTGC
1 CATGATTTAAAGAACATTTA-TGCAATTTCATGCATTTTAAGGTCATTCTAATAATTTGC
*
47456 CATGATTTAAAGAACATTTATGCAATTTCATGCATTTTAAGGTCATTCTAATTATTTGC
1 CATGATTTAAAGAACATTTATGCAATTTCATGCATTTTAAGGTCATTCTAATAATTTGC
* * * * *
47515 CATGACTT-AGGACCA-TTGTGTAATTTCATGCATTT
1 CATGATTTAAAGAACATTTATGCAATTTCATGCATTT
47550 AGGACCATTT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
57 18 0.22
58 19 0.23
59 45 0.55
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (59 bp):
CATGATTTAAAGAACATTTATGCAATTTCATGCATTTTAAGGTCATTCTAATAATTTGC
Found at i:47678 original size:116 final size:115
Alignment explanation
Indices: 47536--47789 Score: 325
Period size: 116 Copynumber: 2.2 Consensus size: 115
47526 ACCATTGTGT
* * *
47536 AATTTCATGCA-TTTAGGACCATTTTAGTCATTTTCTATGTTTTAGGGACTATTATGCAATTTCA
1 AATTTCATGTATTTTAGGACCATTTTAGTCATTTTCTATATTTTAAGGACTATTATGCAATTTCA
* * * *
47600 TACATATT-AGGTCATTTAAGTCATTTTTCTTGCATTAAAGGATTA-TAATGC
66 TACATATTCAAGCCATTTAAGTCATTTTT-ATG-ATTAAAGGACTACT-ATGC
*
47651 AATTTCATGTATTTTAGGACCATTTTAGTCATTTTCTATATTTTAAGGACTATTATTCAATTTCA
1 AATTTCATGTATTTTAGGACCATTTTAGTCATTTTCTATATTTTAAGGACTATTATGCAATTTCA
* * * * * *
47716 TGCATTTTCAAGCCATTTTAGTCATTTTTATGATTTAGGGACTACTATGT
66 TACATATTCAAGCCATTTAAGTCATTTTTATGATTAAAGGACTACTATGC
*
47766 AATTTCATGTATTTTAGCACCATT
1 AATTTCATGTATTTTAGGACCATT
47790 AAAACATTTT
Statistics
Matches: 121, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
115 45 0.37
116 59 0.49
117 17 0.14
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (115 bp):
AATTTCATGTATTTTAGGACCATTTTAGTCATTTTCTATATTTTAAGGACTATTATGCAATTTCA
TACATATTCAAGCCATTTAAGTCATTTTTATGATTAAAGGACTACTATGC
Found at i:47686 original size:58 final size:58
Alignment explanation
Indices: 47353--47789 Score: 306
Period size: 57 Copynumber: 7.6 Consensus size: 58
47343 CATCTTAGGT
** * * * * *
47353 ACTATTATGTGATTTTATGCATTCTAGCACTATTTTAGTCATTTTC-ATGATTTAAAG
1 ACTATTATGCAATTTCATGCATTTTAGGACCATTTTAGTCATTTTCTATGATTTAAGG
* * * * * * * * *
47410 ACCT-TTATTTC-ATTTTATGCATTTTAAGGTCC-TTCTAATAATTTGCCATGATTTAAAGA
1 A-CTATTA-TGCAATTTCATGCATTTT-AGGACCATTTTAGTCATTTTCTATGATTT-AAGG
* * * * * * *
47469 AC-ATTTATGCAATTTCATGCATTTTAAGG-TCATTCTAATTATTTGCCATGACTT-AGG
1 ACTA-TTATGCAATTTCATGCATTTT-AGGACCATTTTAGTCATTTTCTATGATTTAAGG
* * * * *
47526 ACCATTGTGTAATTTCATGCA-TTTAGGACCATTTTAGTCATTTTCTATGTTTTAGGG
1 ACTATTATGCAATTTCATGCATTTTAGGACCATTTTAGTCATTTTCTATGATTTAAGG
* * * * *
47583 ACTATTATGCAATTTCATACATATTAGG-TCATTTAAGTCATTTTTCT-TGCATTAAAGG
1 ACTATTATGCAATTTCATGCATTTTAGGACCATTTTAGTCA-TTTTCTATG-ATTTAAGG
* * *
47641 ATTATAATGCAATTTCATGTATTTTAGGACCATTTTAGTCATTTTCTAT-ATTTTAAGG
1 ACTATTATGCAATTTCATGCATTTTAGGACCATTTTAGTCATTTTCTATGA-TTTAAGG
* * *
47699 ACTATTATTCAATTTCATGCATTTTCAAG-CCATTTTAGTCATTTT-TATGATTTAGGG
1 ACTATTATGCAATTTCATGCATTTT-AGGACCATTTTAGTCATTTTCTATGATTTAAGG
* * * *
47756 ACTACTATGTAATTTCATGTATTTTAGCACCATT
1 ACTATTATGCAATTTCATGCATTTTAGGACCATT
47790 AAAACATTTT
Statistics
Matches: 300, Mismatches: 59, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
55 3 0.01
56 21 0.07
57 113 0.38
58 107 0.36
59 56 0.19
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.46
Consensus pattern (58 bp):
ACTATTATGCAATTTCATGCATTTTAGGACCATTTTAGTCATTTTCTATGATTTAAGG
Found at i:53339 original size:21 final size:20
Alignment explanation
Indices: 53292--53345 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
53282 CATTTTAGGC
*
53292 ATGTATTGATACATTCACTT
1 ATGTATCGATACATTCACTT
53312 ATGTATCGATACATTGC-CTT
1 ATGTATCGATACATT-CACTT
53332 ATTGTATCGATACA
1 A-TGTATCGATACA
53346 AATTACTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:54127 original size:61 final size:60
Alignment explanation
Indices: 54023--54242 Score: 188
Period size: 61 Copynumber: 3.8 Consensus size: 60
54013 AAGATGCGAC
* **
54023 GAATGATAAAGTTGCCAATATGCTGATTCATA-GCCAGGGATATTAGGCATGAAGATGATAA
1 GAATGATAAAGGTGCCAATATGCTGATTCA-AGGCCAACGATATTAGGC-TGAAGATGATAA
* * *
54084 GAATGATAAAGGTGCCAATATACTGATTCAAGGCCAACAATATT--G--G--G-T-TTAA
1 GAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTGAAGATGATAA
* * * * * * * * *
54136 AAATGACAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAGAA
1 GAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTAGGC-TGAAGATGATAA
* * *
54197 GAATGATAAAGGTGTCGATATGCTAATTCAAGGCCAACGATATTAG
1 GAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTAG
54243 ACTTAAAGAT
Statistics
Matches: 122, Mismatches: 27, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
52 39 0.32
53 1 0.01
54 2 0.02
56 1 0.01
59 2 0.02
60 2 0.02
61 75 0.61
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (60 bp):
GAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTGAAGATGATAA
Found at i:54181 original size:52 final size:52
Alignment explanation
Indices: 54085--54349 Score: 221
Period size: 52 Copynumber: 5.0 Consensus size: 52
54075 AGATGATAAG
* * * * **
54085 AATGATAAAGGTGCCAATATACTGATTCAAGGCCAACAATATTGGGTTTAAA
1 AATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * * *
54137 AATGACAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAGAA
1 AATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-A-AA
* * * * * *
54197 GAATGATAAAGGTGTCGATATGCTAATTCAAGGCCAACGATATTAGACTTAAA
1 -AATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * *
54250 GATGACAAAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAGA
1 AATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-A
** *
54303 AA--A-AAAGGTGATAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
1 AATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
54350 GAAAGTAATG
Statistics
Matches: 172, Mismatches: 31, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
50 39 0.23
51 1 0.01
52 83 0.48
53 5 0.03
54 1 0.01
55 1 0.01
58 1 0.01
59 1 0.01
60 3 0.02
61 37 0.22
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (52 bp):
AATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
Found at i:54226 original size:113 final size:113
Alignment explanation
Indices: 54024--54300 Score: 340
Period size: 113 Copynumber: 2.5 Consensus size: 113
54014 AGATGCGACG
* * * * * * *
54024 AATGATAAAGTTGCCAATATGCTGATTCATA-GCCAGGGATATTAGGCATGAAGATGATAAGAAT
1 AATGACAAAGATGCCAATATGCTGATTCA-AGGCCAGCGATATTGGGCTTAAAGATGAGAAGAAT
* * **
54088 GATAAAGGTGCCAATATACTGATTCAAGGCCAACAATATTGGGTTTAAA
65 GATAAAGGTGCCAATATACTAATTCAAGGCCAACAATATTAGACTTAAA
* *
54137 AATGACAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAGAAGAATG
1 AATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAGAAGAATG
* * * *
54202 ATAAAGGTGTCGATATGCTAATTCAAGGCCAACGATATTAGACTTAAA
66 ATAAAGGTGCCAATATACTAATTCAAGGCCAACAATATTAGACTTAAA
* ** * *
54250 GATGACAAAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAA
1 AATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
54301 GAAAAAAAGG
Statistics
Matches: 139, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
112 1 0.01
113 138 0.99
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (113 bp):
AATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAGAAGAATG
ATAAAGGTGCCAATATACTAATTCAAGGCCAACAATATTAGACTTAAA
Found at i:54331 original size:50 final size:50
Alignment explanation
Indices: 54214--54353 Score: 174
Period size: 50 Copynumber: 2.8 Consensus size: 50
54204 AAAGGTGTCG
* * * * *
54214 ATATGCTAATTCAAGGCCAACGATATTAGACTTAAAGATGACAAAGGCGCCA
1 ATATGCTAATTCAAGGCCAGCGATATTGGACTT-AAGA-AAAAAAGGCGACA
* *
54266 ATATGCTAATTCAAGGCCAGCGATATTGGACTTAAGAAAAAAAGGTGATA
1 ATATGCTAATTCAAGGCCAGCGATATTGGACTTAAGAAAAAAAGGCGACA
* *
54316 ATATGCTGATTCAAGGCCAGCGACATTGGACTT-AGAAA
1 ATATGCTAATTCAAGGCCAGCGATATTGGACTTAAGAAA
54354 GTAATGGCTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
49 5 0.06
50 39 0.49
51 4 0.05
52 31 0.39
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (50 bp):
ATATGCTAATTCAAGGCCAGCGATATTGGACTTAAGAAAAAAAGGCGACA
Found at i:54514 original size:33 final size:32
Alignment explanation
Indices: 54423--55173 Score: 706
Period size: 32 Copynumber: 23.5 Consensus size: 32
54413 GAGATACCAT
* *
54423 GACTTGTGTGGGCATTT-GAGAGGGTTGCCACT
1 GACTTGTGTGGGC-TTTAGAAAGGGTTGCCACC
* * * *
54455 GACTTATGTAGGCTATT-GAAGGGGGTTGCCATC
1 GACTTGTGTGGGCT-TTAGAA-AGGGTTGCCACC
* *
54488 GACTTGTGTAGGCTTTAGAAAAGGGTTACCACC
1 GACTTGTGTGGGCTTTAG-AAAGGGTTGCCACC
* * * *
54521 GGCATGTGTGGGCTTTAG-AAGAGGTTTCCACT
1 GACTTGTGTGGGCTTTAGAAAG-GGTTGCCACC
*
54553 GACTTGTGTGGACTTTAGAGAAGGGTTGCCACC
1 GACTTGTGTGGGCTTTAGA-AAGGGTTGCCACC
* * *
54586 AACTTGTGTGGGCTTTAG-AAGAGTTGCCACT
1 GACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
*
54617 AACTTGTGTGGGCTTTTAG-AAGGGTTGCCACC
1 GACTTGTGTGGGC-TTTAGAAAGGGTTGCCACC
* * * *
54649 AACTTGTATGGGCTTT-GAGAATGGTTGCCACT
1 GACTTGTGTGGGCTTTAGA-AAGGGTTGCCACC
* * * *
54681 AACTTGGGTGGGCTTTAGAAGGGGTTACCACC
1 GACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
* *
54713 GACTTGTGTAGGCTTTAGGGAAGGGTTGCCACC
1 GACTTGTGTGGGCTTTA-GAAAGGGTTGCCACC
* * *
54746 TACTTGCGTGGGCTTTAGGGAAGGGTTGCCACC
1 GACTTGTGTGGGCTTTA-GAAAGGGTTGCCACC
* **
54779 GACTTGTGCGAACTTTAGAGAAGGGTTGCCACC
1 GACTTGTGTGGGCTTTAGA-AAGGGTTGCCACC
*
54812 GACTTGTGTGAGCTTT-GAGAAGGGTTGCCACC
1 GACTTGTGTGGGCTTTAGA-AAGGGTTGCCACC
* * * *
54844 GACTTATATGGGCTTTAG-AAGAGTTGCCATC
1 GACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
* *
54875 GACTTGTGTGGGCTTTAGAAGGGGTTGCCATC
1 GACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
* * * *
54907 GACTTGTGTAGGCTTTTGAAAGGGTTTCCATC
1 GACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
**
54939 GACTTGTGTGGGCTTT-GATAAGGGTTGCCATT
1 GACTTGTGTGGGCTTTAGA-AAGGGTTGCCACC
*
54971 GACTTGTGTAGGCTTT-G-AAGGGTTGCCACC
1 GACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
* *
55001 GACTTGTGTGGGCTTTTGAAAGGGTTGCCACT
1 GACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
*
55033 GACTTGTGTGGTCTTT-G-AAGGGTTGCCACC
1 GACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
* * *
55063 GACTTTTGTGGGCTTT-GAAAAGGTTGCCATC
1 GACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
* *
55094 GACTTGTGTGGGCATTT-GAGAGGGTTGCCACA
1 GACTTGTGTGGGC-TTTAGAAAGGGTTGCCACC
* ** * * *
55126 GACTTGTATATGCTTTTGAAAGGGCTAG-TACC
1 GACTTGTGTGGGCTTTAGAAAGGG-TTGCCACC
55158 GACTTGTGTGGGCTTT
1 GACTTGTGTGGGCTTT
55174 GAAGGAAAAG
Statistics
Matches: 603, Mismatches: 94, Indels: 44
0.81 0.13 0.06
Matches are distributed among these distances:
30 54 0.09
31 88 0.15
32 299 0.50
33 157 0.26
34 5 0.01
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.31
Consensus pattern (32 bp):
GACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
Found at i:54952 original size:258 final size:253
Alignment explanation
Indices: 54419--55132 Score: 792
Period size: 258 Copynumber: 2.8 Consensus size: 253
54409 GAAGGAGATA
*
54419 CCAT-GACTTGTGTGGGCATTTG-AGAGGGTTGCCACTGACTTATGTAGGCTATT--GAAGGGGG
1 CCATCGACTTGTGTGGGC-TTTGAAG-GGGTTGCCACTGACTTGTGTAGGCT-TTAGGAA--GGG
* * * * * * *
54480 TTGCCATCGACTTGTGTAGGCTTTAGAAAAGGGTTACCACCGGCATGTGTGGGCTTTAGAAGAGG
61 TTGCCACCGACTTGTGTGGGCTTTAGGAAAGGGTTGCCACCGACTTGTGTGGACTTTAGAAG-GG
* * *
54545 TTTCCACTGACTTGTGTGGACTTTAGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAAGAGT
125 TTGCCACCGACTTGTGTGG-CTTT-GAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGT
* *
54610 TGCCACTA-ACTTGTGTGGGCTTTTAGAAGGGTTGCCACCAACTTGTATGGGCTTTGAGAATGGT
188 TGCCAC-AGACTTGTGTGGGCTTTTAGAAGGGTTGCCACCAACTTGTATAGGCTTTGAGAAGGGT
54674 TG
252 TG
* * * *
54676 CCA-CTAACTTGGGTGGGCTTTAGAAGGGGTTACCACCGACTTGTGTAGGCTTTAGGGAAGGGTT
1 CCATC-GACTTGTGTGGGCTTT-GAAGGGGTTGCCACTGACTTGTGTAGGCTTTA-GGAAGGGTT
* * * * *
54740 GCCACCTACTTGCGTGGGCTTTAGGGAAGGGTTGCCACCGACTTGTGCGAACTTTAGAGAAGGGT
63 GCCACCGACTTGTGTGGGCTTTAGGAAAGGGTTGCCACCGACTTGTGTGGACTTT--AGAAGGGT
* *
54805 TGCCACCGACTTGTGTGAGCTTTGAGAAGGGTTGCCACCGACTTATATGGGCTTTAGAAGAGTTG
126 TGCCACCGACTTGTGTG-GCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGTTG
* * *
54870 CCATC-GACTTGTGTGGGC-TTTAGAAGGGGTTGCCATCGACTTGTGTAGGCTTTTGA-AAGGGT
190 CCA-CAGACTTGTGTGGGCTTTTAGAA-GGGTTGCCACCAACTTGTATAGGC-TTTGAGAAGGGT
*
54932 TT
252 TG
* *
54934 CCATCGACTTGTGTGGGCTTTGATAAGGGTTGCCATTGACTTGTGTAGGCTTT--GAAGGGTTGC
1 CCATCGACTTGTGTGGGCTTTGA-AGGGGTTGCCACTGACTTGTGTAGGCTTTAGGAAGGGTTGC
* * *
54997 CACCGACTTGTGTGGGCTTT-TGAAAGGGTTGCCACTGACTTGTGTGGTCTTT-GAAGGGTTGCC
65 CACCGACTTGTGTGGGCTTTAGGAAAGGGTTGCCACCGACTTGTGTGGACTTTAGAAGGGTTGCC
* * * *
55060 ACCGACTTTTGTGGGCTTTGA-AAAGGTTGCCATCGACTTGTGTGGGCATTT-GAGAGGGTTGCC
130 ACCGACTTGTGT-GGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGC-TTTAGA-AGAGTTGCC
55123 ACAGACTTGT
192 ACAGACTTGT
55133 ATATGCTTTT
Statistics
Matches: 389, Mismatches: 48, Indels: 46
0.81 0.10 0.10
Matches are distributed among these distances:
250 25 0.06
251 48 0.12
252 1 0.00
254 26 0.07
255 28 0.07
257 17 0.04
258 204 0.52
259 31 0.08
260 9 0.02
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.31
Consensus pattern (253 bp):
CCATCGACTTGTGTGGGCTTTGAAGGGGTTGCCACTGACTTGTGTAGGCTTTAGGAAGGGTTGCC
ACCGACTTGTGTGGGCTTTAGGAAAGGGTTGCCACCGACTTGTGTGGACTTTAGAAGGGTTGCCA
CCGACTTGTGTGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGTTGCCACAG
ACTTGTGTGGGCTTTTAGAAGGGTTGCCACCAACTTGTATAGGCTTTGAGAAGGGTTG
Found at i:55246 original size:30 final size:30
Alignment explanation
Indices: 55211--55273 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
55201 ATTTTAAAAG
* * *
55211 AAAAAAGGTGCCATAGAGTTGTGGACTTAA
1 AAAAAACGTGCCACAGAGTTGTAGACTTAA
*
55241 AAAAAACGTGCCACGGAGTTGTAGACTTAA
1 AAAAAACGTGCCACAGAGTTGTAGACTTAA
55271 AAA
1 AAA
55274 GGAAAAGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.21
Consensus pattern (30 bp):
AAAAAACGTGCCACAGAGTTGTAGACTTAA
Found at i:55302 original size:34 final size:33
Alignment explanation
Indices: 55264--55430 Score: 107
Period size: 34 Copynumber: 5.2 Consensus size: 33
55254 CGGAGTTGTA
*
55264 GACTTAAAAAGGAAAAGGGTGCCACTGAGTCATG
1 GACTT-AAAAGGAAAAGGATGCCACTGAGTCATG
** * *
55298 GACTT-TGA-GAAGA-GATGCCACTGAGTCTTG
1 GACTTAAAAGGAAAAGGATGCCACTGAGTCATG
* * *
55328 GACTTGAAAAGAAAAAGGTTGCCAC-GAAGTCGTG
1 GACTT-AAAAGGAAAAGGATGCCACTG-AGTCATG
** *
55362 GACTT-TGA-GAAGA-GATGCCACTGAGTCATG
1 GACTTAAAAGGAAAAGGATGCCACTGAGTCATG
* * *
55392 GACTTGAAAAGAAAAAGGGTGCCA-TAGAGTCGTG
1 GACTT-AAAAGGAAAAGGATGCCACT-GAGTCATG
55426 GACTT
1 GACTT
55431 TGAAGAAGGA
Statistics
Matches: 99, Mismatches: 23, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
30 38 0.38
31 8 0.08
32 4 0.04
33 8 0.08
34 41 0.41
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (33 bp):
GACTTAAAAGGAAAAGGATGCCACTGAGTCATG
Found at i:55317 original size:64 final size:63
Alignment explanation
Indices: 55206--55438 Score: 249
Period size: 64 Copynumber: 3.6 Consensus size: 63
55196 TGTGAATTTT
* * ** * * * *
55206 AAAAGAAAAAAGGTGCCA-TAGAGTTGTGGACTTAAAAAAAACG-TGCCACGGAGTTGTAGACTT
1 AAAAGAAAAAGGGTGCCACT-GAGTCGTGGACTTTGAGAAGA-GATGCCACTGAGTT-TGGACTT
*
55269 A
63 G
* *
55270 AAAAGGAAAAGGGTGCCACTGAGTCATGGACTTTGAGAAGAGATGCCACTGAGTCTTGGACTTG
1 AAAAGAAAAAGGGTGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGT-TTGGACTTG
* *
55334 AAAAGAAAAAGGTTGCCAC-GAAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTG
1 AAAAGAAAAAGGGTGCCACTG-AGTCGTGGACTTTGAGAAGAGATGCCACTGAGT-TTGGACTTG
55398 AAAAGAAAAAGGGTGCCA-TAGAGTCGTGGACTTTGAAGAAG
1 AAAAGAAAAAGGGTGCCACT-GAGTCGTGGACTTTG-AGAAG
55439 GAAAAAGATT
Statistics
Matches: 146, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
63 2 0.01
64 136 0.93
65 8 0.05
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (63 bp):
AAAAGAAAAAGGGTGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTTTGGACTTG
Found at i:55319 original size:30 final size:30
Alignment explanation
Indices: 55283--55396 Score: 124
Period size: 30 Copynumber: 3.7 Consensus size: 30
55273 AGGAAAAGGG
55283 TGCCACTGAGTCATGGACTTTGAGAAGAGA
1 TGCCACTGAGTCATGGACTTTGAGAAGAGA
* * *
55313 TGCCACTGAGTCTTGGAC-TTGAAAAGAAAAAGGT
1 TGCCACTGAGTCATGGACTTTG---AG-AAGA-GA
*
55347 TGCCAC-GAAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTG-AGTCATGGACTTTGAGAAGAGA
55377 TGCCACTGAGTCATGGACTT
1 TGCCACTGAGTCATGGACTT
55397 GAAAAGAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
29 3 0.04
30 35 0.51
31 4 0.06
32 4 0.06
33 4 0.06
34 16 0.23
35 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCATGGACTTTGAGAAGAGA
Found at i:55364 original size:128 final size:129
Alignment explanation
Indices: 55206--55438 Score: 278
Period size: 128 Copynumber: 1.8 Consensus size: 129
55196 TGTGAATTTT
* * **
55206 AAAAGAAAAAAGGTGCCATAGAGTTGTGGACTTAAAAAAAACG-TGCCACGGAGTTGTAGACTTA
1 AAAAGAAAAAAGGTGCCAGAGAGTCGTGGACTTAAAAAAAA-GATGCCACGGAGTCATAGACTTA
*
55270 AAAAGGAAAAGGGTGCCACT-GAGTCATGGACTTTG-AGAAGAGATGCCACTGAGTCTTGGACTT
65 AAAAGAAAAAGGGTGCCA-TAGAGTCATGGACTTTGAAGAAGAGATGCCACTGAGTCTTGGACTT
55333 G
129 G
** * * * *
55334 AAAAG-AAAAAGGTTGCCACGA-AGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTT
1 AAAAGAAAAAAGG-TGCCA-GAGAGTCGTGGACTTAAAAAAAAGATGCCACGGAGTCATAGACTT
* *
55397 GAAAAGAAAAAGGGTGCCATAGAGTCGTGGACTTTGAAGAAG
64 AAAAAGAAAAAGGGTGCCATAGAGTCATGGACTTTGAAGAAG
55439 GAAAAAGATT
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
127 9 0.10
128 72 0.83
129 6 0.07
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (129 bp):
AAAAGAAAAAAGGTGCCAGAGAGTCGTGGACTTAAAAAAAAGATGCCACGGAGTCATAGACTTAA
AAAGAAAAAGGGTGCCATAGAGTCATGGACTTTGAAGAAGAGATGCCACTGAGTCTTGGACTTG
Found at i:55936 original size:20 final size:20
Alignment explanation
Indices: 55908--55987 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
55898 ACTACCAAGG
*
55908 AAATATATCGATACATTACT
1 AAATGTATCGATACATTACT
*
55928 AAATGTATCGATGCATGCTTAC-
1 AAATGTATCGATACA---TTACT
* *
55950 AATTGTATCGATACATTTCT
1 AAATGTATCGATACATTACT
* * *
55970 CATTGCATCGATACATTA
1 AAATGTATCGATACATTA
55988 TGGGTTTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 3 0.06
20 28 0.58
22 13 0.27
23 4 0.08
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:59852 original size:51 final size:51
Alignment explanation
Indices: 59779--59881 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
59769 CTTGACGACC
59779 AAAAAGGTGATGCAATTTAGGCTATTGCTACCCTGCATAATCATGACACAA
1 AAAAAGGTGATGCAATTTAGGCTATTGCTACCCTGCATAATCATGACACAA
59830 AAAAAGGTGATGCAATTTAGGCTATTGCTACCCTGCATAATCATGACACAA
1 AAAAAGGTGATGCAATTTAGGCTATTGCTACCCTGCATAATCATGACACAA
59881 A
1 A
59882 TGTTTCTGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (51 bp):
AAAAAGGTGATGCAATTTAGGCTATTGCTACCCTGCATAATCATGACACAA
Found at i:65510 original size:52 final size:52
Alignment explanation
Indices: 65426--65617 Score: 215
Period size: 52 Copynumber: 3.7 Consensus size: 52
65416 AATTGCCTGC
** * * * ** *
65426 ATGTATCGATACTTTGAAGAATATATCAATACATTTAAGTCAAAAACCCAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATTTGGGTCAAAAACCTAGA
*
65478 ATGTATTGATACAATGAATAATGTATCGATACATTTGGGT-AAAAAGCCTAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATTTGGGTCAAAAA-CCTAGA
** * *
65530 ATGTATTAATACAATGAATAATGTATCGATATATTTGGGTCAAAAACCTAAA
1 ATGTATCGATACAATGAATAATGTATCGATACATTTGGGTCAAAAACCTAGA
* * * *
65582 ATGTATCGATACAATAAAAAATGCATCGATATATTT
1 ATGTATCGATACAATGAATAATGTATCGATACATTT
65618 TCTTTCCAGA
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
51 5 0.04
52 111 0.92
53 5 0.04
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (52 bp):
ATGTATCGATACAATGAATAATGTATCGATACATTTGGGTCAAAAACCTAGA
Found at i:65724 original size:21 final size:20
Alignment explanation
Indices: 65673--65726 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
65663 TATCTCAAGC
65673 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTTACTT
65693 ATGTATCGATACA-TTACCTT
1 ATGTATCGATACATTTA-CTT
*
65713 ATTGTATTGATACA
1 A-TGTATCGATACA
65727 AATTCTTCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 3 0.10
20 17 0.55
21 11 0.35
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTACTT
Found at i:66111 original size:25 final size:23
Alignment explanation
Indices: 66079--66137 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
66069 ATTGACATTG
* *
66079 TAATATATAATATGTTATTATATTA
1 TAATATATAATAT-TTAGTA-ATCA
66104 TAATATATAAATATTTAGTAATCA
1 TAATATAT-AATATTTAGTAATCA
66128 T-ATATATAAT
1 TAATATATAAT
66138 CTATATTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 3 0.10
23 6 0.19
24 4 0.13
25 13 0.42
26 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (23 bp):
TAATATATAATATTTAGTAATCA
Found at i:67433 original size:21 final size:21
Alignment explanation
Indices: 67400--67450 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
67390 ATTTATTTAT
*
67400 AAAAAGATAAAAGAA-AAATGAA
1 AAAAAAAT-AAAGAAGAAA-GAA
*
67422 AAACAAATAAAGAAGAAAGAA
1 AAAAAAATAAAGAAGAAAGAA
67443 AAAAAAAT
1 AAAAAAAT
67451 GCAGAGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (21 bp):
AAAAAAATAAAGAAGAAAGAA
Done.